SMTL ID : 4p6s.1

Crystal Structure of tyrosinase from Bacillus megaterium with L-DOPA in the active site

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

6 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: H.39, H.57, H.66, F.224 Ligands: ZN.2, DAH.5 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.39, A:H.57, H2O.6 ZN.2: 6 residues within 4Å: Chain A: H.201, H.205, F.224, H.228 Ligands: ZN.1, DAH.5 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.201, A:H.205, A:H.228, H2O.6 ZN.3: 4 residues within 4Å: Chain A: D.52, M.58, D.180, M.181 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.52 ZN.6: 6 residues within 4Å: Chain B: H.39, H.57, H.66, F.224 Ligands: ZN.7, DAH.10 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.39, B:H.57, B:H.66, H2O.10 ZN.7: 6 residues within 4Å: Chain B: H.201, H.205, F.224, H.228 Ligands: ZN.6, DAH.10 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.201, B:H.205, B:H.228, H2O.10 ZN.9: 4 residues within 4Å: Chain B: N.54, H.57, M.58, V.215 No protein-ligand interaction detected (PLIP)

4 x DAH: 3,4-DIHYDROXYPHENYLALANINE(Covalent)(Non-covalent)

DAH.4: 5 residues within 4Å: Chain A: N.7, L.9, H.10, E.90, T.93 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.90 Water bridges: A:L.9 DAH.5: 13 residues within 4Å: Chain A: H.39, H.57, F.194, H.201, N.202, H.205, M.212, G.213, V.214, V.215, A.218 Ligands: ZN.1, ZN.2 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:H.205, A:V.215 Hydrogen bonds: A:V.214 Water bridges: A:N.202, A:N.202 pi-Stacking: A:H.205 DAH.8: 4 residues within 4Å: Chain B: N.7, L.9, H.10, E.90 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:L.9 Hydrogen bonds: B:H.10 Water bridges: B:E.90, B:E.90 pi-Stacking: B:H.10 DAH.10: 10 residues within 4Å: Chain B: H.39, H.57, H.201, N.202, H.205, R.206, V.215, F.224 Ligands: ZN.6, ZN.7 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:H.205, B:V.215 Hydrogen bonds: B:H.201 Salt bridges: B:R.206 pi-Stacking: B:H.205

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Goldfeder, M. et al., Determination of tyrosinase substrate-binding modes reveals mechanistic differences between type-3 copper proteins. Nat Commun (2014)

Release Date

2014-07-30

Peptides

Tyrosinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Tyrosinase

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